Variant report

Variant	rs9455459
Chromosome Location	chr6:72118947-72118948
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-B3GAT2-3	chr6:72117911-72119956	XLOC_005764
2	lnc-B3GAT2-3	chr6:72118646-72122251	NONHSAT113497

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs56233221	0.83[AFR][1000 genomes]
rs57187710	0.83[AFR][1000 genomes]
rs58011923	0.83[AFR][1000 genomes]
rs73747116	0.83[AFR][1000 genomes]
rs73747118	0.86[AFR][1000 genomes]
rs73747121	0.91[AFR][1000 genomes]
rs73747125	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9446385	0.91[YRI][hapmap];0.88[AFR][1000 genomes]
rs9455443	0.83[AFR][1000 genomes]
rs9455444	0.83[AFR][1000 genomes]
rs9455460	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830684	chr6:72094842-72282684	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	488 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:72104000-72122000	Weak transcription	Fetal Stomach	stomach
2	chr6:72106000-72119600	Weak transcription	Lung	lung
3	chr6:72106000-72124800	Weak transcription	Fetal Muscle Leg	muscle
4	chr6:72106400-72126800	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr6:72106400-72128600	Weak transcription	Fetal Brain Male	brain
6	chr6:72106600-72122000	Weak transcription	Brain Substantia Nigra	brain
7	chr6:72106800-72119400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr6:72106800-72122000	Weak transcription	Brain Cingulate Gyrus	brain
9	chr6:72106800-72128600	Weak transcription	Fetal Brain Female	brain
10	chr6:72106800-72128800	Weak transcription	Brain Germinal Matrix	brain
11	chr6:72107800-72125000	Weak transcription	Fetal Muscle Trunk	muscle
12	chr6:72114000-72119400	Weak transcription	Right Ventricle	heart
13	chr6:72114000-72124800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr6:72114200-72120600	Weak transcription	Aorta	Aorta
15	chr6:72114200-72122200	Weak transcription	Right Atrium	heart
16	chr6:72114200-72125000	Weak transcription	Brain Angular Gyrus	brain
17	chr6:72114600-72121600	Weak transcription	Colon Smooth Muscle	Colon
18	chr6:72114600-72121800	Weak transcription	Rectal Smooth Muscle	rectum
19	chr6:72114800-72119400	Weak transcription	Fetal Intestine Small	intestine
20	chr6:72114800-72121800	Weak transcription	Ovary	ovary
21	chr6:72115000-72119600	Weak transcription	Adipose Nuclei	Adipose
22	chr6:72115200-72119600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr6:72115200-72121800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr6:72115400-72121800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr6:72115400-72121800	Weak transcription	Fetal Heart	heart
26	chr6:72115400-72125200	Weak transcription	Fetal Intestine Large	intestine
27	chr6:72115600-72121400	Weak transcription	Liver	Liver
28	chr6:72115600-72123000	Genic enhancers	Muscle Satellite Cultured Cells	--
29	chr6:72115800-72120400	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
30	chr6:72116200-72128600	Weak transcription	Placenta Amnion	Placenta Amnion
31	chr6:72116600-72119200	Weak transcription	Cortex derived primary cultured neurospheres	brain
32	chr6:72117000-72119000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr6:72117200-72119200	Weak transcription	Placenta	Placenta
34	chr6:72117200-72119800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr6:72117200-72122400	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr6:72117400-72119200	Weak transcription	Fetal Lung	lung
37	chr6:72117400-72119400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr6:72117400-72119400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr6:72117400-72119400	Weak transcription	Pancreas	Pancrea
40	chr6:72117400-72121000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr6:72117400-72121800	Weak transcription	Gastric	stomach
42	chr6:72117400-72121800	Weak transcription	Spleen	Spleen
43	chr6:72117400-72122200	Weak transcription	Esophagus	oesophagus
44	chr6:72117600-72119200	Weak transcription	NHLF	lung
45	chr6:72117600-72119400	Weak transcription	Left Ventricle	heart
46	chr6:72117600-72119400	Weak transcription	Psoas Muscle	Psoas
47	chr6:72117600-72121800	Weak transcription	H1 Cell Line	embryonic stem cell
48	chr6:72117600-72121800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr6:72117600-72121800	Genic enhancers	Hela-S3	cervix
50	chr6:72117600-72122200	Weak transcription	HUES48 Cell Line	embryonic stem cell

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